Typing tool
|
|
|
|
|
|
Typing tool
|
Complete norovirus genomes
| MW305730 | GII.14 | |
|
|---|---|---|---|
| GII.P7 |
ORF1: 1..5062
ORF2: 5043..6653
ORF3: 6653..7447
LOCUS MW305730 7495 bp RNA linear VRL 06-JUL-2021
DEFINITION Norovirus GII isolate DS338 nonstructural polyprotein (ORF1) gene,
partial cds; and VP1 (ORF2) and VP2 (ORF3) genes, complete cds.
ACCESSION MW305730
VERSION MW305730.1
KEYWORDS .
SOURCE Norovirus GII
ORGANISM Norovirus GII
Viruses; Riboviria; Orthornavirae; Pisuviricota; Pisoniviricetes;
Picornavirales; Caliciviridae; Norovirus; Norwalk virus.
REFERENCE 1 (bases 1 to 7495)
AUTHORS Tohma,K., Lepore,C.J., Martinez,M., Degiuseppe,J.I., Khamrin,P.,
Saito,M., Mayta,H., Nwaba,A., Ford-Siltz,L.A., Galeano,M.E.,
Zimic,M., Stupka,J.A., Gilman,R.H., Maneekarn,N., Ushijima,H.,
Green,K.Y. and Parra,G.I.
TITLE Genome-wide analyses of human noroviruses reveal coexistence of
viral populations evolving under recombination constraints
JOURNAL Unpublished
REFERENCE 2 (bases 1 to 7495)
AUTHORS Tohma,K., Lepore,C.J., Martinez,M., Degiuseppe,J.I., Khamrin,P.,
Saito,M., Mayta,H., Nwaba,A., Ford-Siltz,L.A., Galeano,M.E.,
Zimic,M., Stupka,J.A., Gilman,R.H., Maneekarn,N., Ushijima,H.,
Green,K.Y. and Parra,G.I.
TITLE Direct Submission
JOURNAL Submitted (23-NOV-2020) CBER/OVRR/DVP/LHV, U.S. Food and Drug
Administration, 10903 New Hampshire Avenue, Silver Spring, MD
20993, USA
COMMENT ##Assembly-Data-START##
Assembly Method :: High-performance Integrated Virtual
Environment (HIVE) v. 2
Sequencing Technology :: Illumina
##Assembly-Data-END##
FEATURES Location/Qualifiers
source 1..7495
/organism="Norovirus GII"
/mol_type="genomic RNA"
/isolate="DS338"
/isolation_source="feces"
/host="Homo sapiens"
/db_xref="taxon:122929"
/country="Saudi Arabia"
/collection_date="1990"
/note="genotype: GII.14[GII.P7]"
gene <1..5062
/gene="ORF1"
CDS <1..5062
/gene="ORF1"
/codon_start=2
/product="nonstructural polyprotein"
/protein_id="QPJ59526.1"
/translation="FGSQNSVNDSINTAPSDREEVGAFSNIKVGFKKMLGAVPKSTKT
PSSDQQRPTVKIGPKTLVVPPEPPNGEDVVQFDAKSETVSGLPDLTTVQNEHENTPYT
VPPLSEREHRPAAEPLPGTILEMWDGEFYHYSVYVSGGKALGVHKPPAAISLATIELT
PISLYWRPVYTPNYLVCPDTLKGLAGEKFPYTAFSNNCYNFCCWVLELNDTWLCRRCI
SRTTGFFKPYQTWNRKPLPTVDDGKIKKVANAILCALGSLFSKPIKDLLGKLKPLNLL
HLLASCDWTFAGIVETVILMAELFNVFWTPPDVSNFIASLIGDFELQGPEDLAVELVP
VVMGGIGMVLGFTAEKIGRMLSSAASTLRACKDLGNYALDILKLVMKWFFPKKEEKAE
METLRAIEDAVLDMEAIGNNHLTTLLKDKDSLTAFMKTLDLEEEKARKLSTKSSSPDI
VGTINAILARIAAARSLLHKAKEEMFSRIRPVVVMISGRPGIGKTHMARHLAKSIANT
MSGDQRVGLVPRNGVDHWDAYRGERVVLWDDYGMGSPVKDALTLQELADTCPVTLNCD
RIENKGKMFDSDVIIITTNLVNPAPLDYVNFEACSRRVDFLVYAESPEIEKVKRDFPG
QPDMWKDHFKSDFSHIKLTLAPQGGFDKNGNTPHGKGTMRSLTQGSLTARVAGLVHER
RDEFQLQGNDLQTYNFDTNRVSAFRKLAADNKYGIMETMRVGAALKNVKTLEDLKVAL
RDVRFNECEIIYRNSKYRVSSNGKGSVSIDKVEDHASQTANEVSSALLRLRQARARYY
VSCFQDLVYTLIQVAGASFVVNRISKRFCWERWVKPTETQETVEPEKETAQGRWEIEP
KDAEPEGKKGKNKKGRGKKHTAFSSKGLSDEEYDEYKRIREERNGKYSIEEYLQDRDR
YYEEVAVARATEEDFCEEEEAKIRQRIFRPTRKQRKEERGVLGLVTGSDIRKRRPDDF
QPKGNLWADDTRSVDYNERLDFEAPPSVWSRIVPLGTGWGFWVSSNLLITTTHVLPKG
LKELFGVEVKQIQIHKSGEFCRFRFPRPIRPDVTGLVLEEGAPEGTVCSILVKRPTGE
MIPLAVRMGTHASMKIQGRTVGGQMGMLLTGANAKNMDLGTGPGDCGCPYIYKRGNDI
VVAGVHTAAARGGNTVICATQGQDGEAVLEGNENLGTYCGAPILGPGKAPKLSTKTKF
WRSSPDALPPGTYEPAYLGGKDPRVEKGPSLQQVMRDQLKPFTEPRGKPPRPAVLEEA
KKTVMNVLEQTIDPAKPWTYSQACASLDKTTSSGSPHHVRKNDHWNGESFTGPLADQA
SKANLMYEQAKHVQPVYTAALKDELVKTDKIYKKIKKRLLWGSDLGTMVRCARAFGGL
MDSMKASCIALPCRVGMNMNEDGPIIFDKHSKYRYHYDADYSRWDSTQQRSILSAAME
VMVRFSAEPELAQVVAEDLLAPSQLDVGDFVISVQEGLPSGVPCTSQWNSIAHWILTL
SAMAEVSGLSPDVVQAHSCFSFYGDDEIVSTDINLDPAKLTQKLREYGLVPTRPDKTE
GPLVITEDLAGLTFLRRSIARDPAGWFGKLDQDSILRQLYWTRGPNHENPYESMVPHS
QRATQLMALLGEASLHGPQFYKKVSKMVINEIKSGGLEFYVPRQEAMFRWMRFSDLST
WEGDRNLAPEGVNEDGVE"
mat_peptide <1..970
/gene="ORF1"
/product="p48"
mat_peptide 971..2068
/gene="ORF1"
/product="NTPase"
mat_peptide 2069..2587
/gene="ORF1"
/product="p22"
mat_peptide 2588..2986
/gene="ORF1"
/product="VPg"
mat_peptide 2987..3529
/gene="ORF1"
/product="Pro"
mat_peptide 3530..5059
/gene="ORF1"
/product="RdRp"
gene 5043..6653
/gene="ORF2"
CDS 5043..6653
/gene="ORF2"
/note="major capsid protein"
/codon_start=1
/product="VP1"
/protein_id="QPJ59527.1"
/translation="MKMASNDATPSDDGAAGLVPEINNEVMALEPVAGASLAAPVVGQ
QNIIDPWIRNNFVQAPAGEFTVSPRNSPGELLLDLELGPELNPYLAHLARMYNGHAGG
MEVQIVLAGNAFTAGKILFAAIPPSFPYENLSPAQLTMCPHVIVDVRQLEPVLLPMPD
IRNVFYHYNQNNSPKLRLVAMLYTPLRANNSGDDVFTVSCRVLTRPSPDFQFTFLVPP
TVESKTKNFTLPVLRVSEMTNSRFPVVLDQMYTSRNENIIVQPQNGRCTTDGELLGTT
ILQSVSICNFRGTMQAKLNEQPRYQLQLTNLDGSPIDPTDDMPAPLGTPDFQAMLYGV
ASQRSSRDNATRAHDAQIDTAGDTFAPKIGQVRFKSSSDDFDLHDPTKFTPIGVNVDD
QHPFRQWSLPNYGGHLALNNHLAPAVTPLFPGEQILFFRSYIPSAGGHTDGAMDCLLP
QEWIEHFYQEAAPSQSDIALVRFINPDTGRVLFEAKLHKQGFLTIAASGDHPIVMPTN
GYFRFEAWVNPFYTLAPVGTGSGRRRIQ"
gene 6653..7447
/gene="ORF3"
CDS 6653..7447
/gene="ORF3"
/note="minor structural protein; small basic protein"
/codon_start=1
/product="VP2"
/protein_id="QPJ59528.1"
/translation="MAGAFLAGLAGDVVTSSLGSLVGAGANAINQKVEYDFNRQLQEA
SFRHDKDMLKAQVAATAGLQQAMIDIKREALTAGGFSPADAARGAVRAPMTQILDWNG
SRYWAPNSMKTTGYSGTFASQGIKNLPHLSSQAPSAARPTKASPSISSSSSVYSSPST
APSQSTQSTTLSAGTGSSRPNTVSTKTSTLSRTSDWVRGQNEMLGPFMSGALQTAYVT
PPSSRASSQGTVSTVPKAVLDSWTPMFNTHRQPLFAHLRRRGESQI"
ORIGIN
1 ctttggcagt caaaactctg tcaatgacag tattaacacc gccccttctg atagagaaga
61 ggttggtgca ttctccaaca ttaaagttgg atttaagaaa atgctgggcg ccgtgcccaa
121 aagcaccaaa acgcccagca gtgatcaaca acgccccaca gttaagatcg ggcccaaaac
181 attagtagtc ccacctgaac ccccaaatgg agaagatgtt gtgcagtttg atgcaaagtc
241 agaaactgtg agtgggttac cagatctgac aacggtgcag aatgaacatg aaaacacccc
301 atatacagtt cccccactga gtgagaggga acacagacca gccgctgagc cactccctgg
361 cacaatacta gagatgtggg acggtgagtt ctaccactac tccgtctatg tcagcggtgg
421 caaagcccta ggggtccaca aaccccctgc agccataagt ctcgcaacaa ttgagctaac
481 ccccatatct ctgtactggc ggcctgtcta cacccccaac tacttggttt gtccagacac
541 attaaagggc ctagctggtg agaagttccc ctacacggct ttcagcaaca actgttacaa
601 cttctgttgc tgggtgctgg agctcaacga cacgtggctt tgcagaagat gcatctctag
661 aaccaccggc ttctttaaac cgtaccagac ctggaacagg aagcctcttc caactgtcga
721 cgatgggaag attaaaaagg tggccaatgc aattctctgt gcgcttggct cactgttttc
781 aaaaccaatc aaagacctat tgggcaagct caaaccactg aatcttctgc atctgctcgc
841 gtcatgtgat tggacctttg cgggtatagt ggagacggtc atcttaatgg cggaactctt
901 taacgtcttt tggactccgc cagatgtctc caatttcatt gcctccctga taggtgactt
961 tgagttgcag gggcctgagg acttagctgt ggagctcgtc cctgtggtta tgggtggtat
1021 aggaatggtt cttggtttca ctgctgaaaa gataggccgc atgttgtcat ctgctgcatc
1081 aaccctccgg gcgtgtaaag atctgggaaa ctacgccctc gacatactca agctagtcat
1141 gaagtggttc ttccccaaga aagaagaaaa agctgagatg gagaccctaa gagcgattga
1201 ggatgctgtc ctggacatgg aggctatagg aaacaaccat ctcacaactc tcctcaaaga
1261 caaggatagc ctcacggctt tcatgaagac cctagaccta gaagaggaaa aggcgaggaa
1321 actgtcaacc aaatcatcat cgcctgatat cgtcggcacc attaatgcca tactggccag
1381 aattgctgcc gccagatccc tcctacacaa ggccaaagaa gagatgttca gcagaatcag
1441 accagtggtt gttatgatct caggcagacc tggcattggc aagacccaca tggcaagaca
1501 tctggctaag agcatcgcca acaccatgag cggcgaccag agggtcggac tcgttccgcg
1561 aaacggggta gaccactggg atgcctacag aggggagagg gtggtcttgt gggatgacta
1621 tggcatgggc agccctgtca aagatgcttt aacactacaa gaattggccg acacttgccc
1681 agtcacccta aattgtgaca ggattgaaaa caaggggaag atgtttgaca gtgacgtcat
1741 tataatcaca accaacttgg tcaaccccgc acccctcgac tatgtgaact ttgaggcgtg
1801 ctccagaaga gttgactttc tggtctatgc agagtcacca gaaatcgaaa aggtcaagag
1861 ggatttccct ggtcagcctg acatgtggaa agaccacttc aaatcggact tctcccatat
1921 aaaactaact ctagcccccc agggtgggtt tgataagaat ggtaatactc cgcatggcaa
1981 gggcaccatg cgatctctaa cccagggttc cctaactgca agggttgcag gattagttca
2041 tgagaggaga gatgaattcc aactccaagg aaatgacctc caaacataca attttgacac
2101 caacagggtc tctgcattta ggaaactggc tgcagataac aagtatggaa tcatggagac
2161 aatgagagtg ggtgcagcac ttaagaatgt caagactttg gaagatctaa aagtcgcttt
2221 gagagacgtg agattcaatg agtgtgaaat catttacagg aactccaaat atcgagtctc
2281 ttccaatggc aagggttcgg tctctattga taaggttgaa gaccatgcat cccagactgc
2341 aaatgaagtg agttcagcgc ttctaaggct caggcaagca agggccagat actatgttag
2401 ttgtttccaa gaccttgtct acacgctcat acaagttgcc ggggcgtcat tcgttgtcaa
2461 cagaatctcc aagaggtttt gctgggaaag gtgggttaaa ccaaccgaga ctcaagagac
2521 agttgagccc gagaaggaga ctgctcaagg caggtgggag attgaaccca aggacgcaga
2581 accagaaggc aagaagggta agaacaagaa aggaagaggc aagaaacaca cagccttctc
2641 cagtaagggt ctgagtgatg aagaatatga tgaatacaaa agaatcagag aagaaagaaa
2701 tgggaagtac tccattgagg aatacttaca ggatcgggac cgctactacg aagaagtggc
2761 agtcgcccga gcaacagagg aagacttctg tgaagaggag gaggccaaga tcagacagag
2821 aatcttccgc ccaacaagga agcaaagaaa agaggaaagg ggcgtgcttg gcttggtcac
2881 cggctcagac attaggaaga gaagaccaga tgacttccaa ccaaaaggca acttgtgggc
2941 agatgacact agaagtgtag attataatga gagacttgac tttgaggccc ccccaagtgt
3001 ttggtctaga atagtcccac tgggcactgg ttggggtttt tgggtctcat ctaaccttct
3061 gattactact acacatgtcc tgcccaaggg actcaaagaa ctctttggag ttgaggttaa
3121 acaaattcaa attcacaaat ctggtgagtt ctgcaggttt agattcccaa gaccaattag
3181 accagatgtc acagggctag tgttggaaga aggtgctcca gagggcactg tctgctccat
3241 acttgtgaag agacccacag gtgagatgat tcccttggca gtgaggatgg gcactcatgc
3301 atccatgaaa atccagggca ggaccgttgg tggccaaatg ggaatgcttc tcacaggagc
3361 gaatgccaag aacatggacc ttggtaccgg ccctggtgac tgcggttgcc cctacattta
3421 caagcgcggc aatgacatag tcgttgcagg cgttcacacc gcagcagccc ggggaggcaa
3481 tactgtcatc tgtgccaccc aagggcaaga tggagaggca gttcttgaag gaaatgaaaa
3541 cctcggcact tactgcggtg ccccaattct aggccctggc aaggcgccca aactcagcac
3601 aaaaaccaaa ttctggcgtt catcgccaga cgccttacca cctggcacat atgagcctgc
3661 ttacctagga ggcaaggacc ccagagtaga gaaagggccc tctctgcagc aggtcatgag
3721 agaccaacta aaacctttta cagagcctag gggcaagcca ccgagacctg cagtcctaga
3781 agaggctaag aagacagtga tgaatgttct ggaacaaacc atcgaccctg ccaaaccatg
3841 gacctactct caggcatgtg catcattgga caaaaccacc tccagtggca gcccccacca
3901 tgtcaggaaa aacgaccact ggaatgggga gtctttcaca ggtcctcttg cagatcaagc
3961 atccaaagcc aatctcatgt atgagcaggc caagcatgta cagcccgtgt acacggccgc
4021 actcaaggat gagcttgtta agactgataa aatctacaaa aagataaaga agagactcct
4081 atggggatca gatcttggca cgatggtcag gtgcgccagg gcttttggcg gcctcatgga
4141 tagcatgaag gcgagctgca tagcccttcc atgtagggtg ggaatgaaca tgaatgagga
4201 cggtcccatc atctttgaca agcactccaa gtacaggtac cactatgatg ctgactactc
4261 aaggtgggat tcaactcaac aaagaagcat cctatctgct gctatggagg tgatggttcg
4321 gttctctgca gaaccagaat tggcacaagt ggttgcagag gatctcttgg cacctagtca
4381 gctggatgtt ggcgattttg tcatctcagt ccaggagggt ctaccatcgg gggttccgtg
4441 cacatcgcaa tggaattcaa tagcacactg gatcctaacc ttaagtgcaa tggcagaagt
4501 gtcaggcctt tcaccagatg ttgtccaagc ccactcctgt ttttccttct atggtgatga
4561 tgagattgtc agcactgata tcaaccttga tcctgcaaaa ctgacacaga aactcaggga
4621 gtacggcctt gttcccaccc gacctgacaa gactgaaggt ccccttgtca taactgagga
4681 cctagccggt ctgacgttcc tccgtaggtc aatagcacga gacccggctg gatggtttgg
4741 aaaactggac caggactcaa ttctcagaca gctgtactgg acaagagggc ccaaccatga
4801 gaacccatac gaaagcatgg tcccccactc tcaacgagct acacagctca tggccctcct
4861 tggtgaagcc tcattacatg ggccccagtt ttacaagaag gttagcaaaa tggtcattaa
4921 tgagatcaaa agtggtggtc tagaatttta tgtgcccaga caagaggcca tgttcaggtg
4981 gatgagattt tctgacctca gcacatggga gggcgatcgc aatcttgctc ccgagggtgt
5041 gaatgaagat ggcgtcgaat gacgctactc catctgatga tggtgcagcc ggcctcgtac
5101 cagagatcaa caatgaggtt atggctcttg aacccgttgc tggggcctct cttgcagccc
5161 ctgtagtcgg acaacagaat ataattgatc cctggattag gaataatttt gtacaagccc
5221 ctgctggtga atttacagtt tcccctagaa actctcctgg agaactttta cttgatctag
5281 aattgggtcc tgaactgaat ccctatcttg cacatttggc caggatgtac aatgggcatg
5341 caggaggaat ggaagtgcag atagtactgg ctgggaatgc gttcacagct ggtaagatcc
5401 tatttgctgc catcccgcct agtttcccct acgaaaattt gtcacccgct caattgacta
5461 tgtgccccca tgtgatagtg gatgtgagac aattagaacc agtacttctg ccaatgcctg
5521 atataagaaa tgttttctac cattacaacc agaacaacag ccctaaactt aggcttgtag
5581 ctatgctcta tactcccctg agagctaaca actcaggtga tgacgtgttc acggtgtcat
5641 gccgcgtttt aacacgtcct tctccagact tccagtttac cttcctggtc ccacctacag
5701 ttgaatctaa aactaaaaat tttaccctcc ctgtcctcag agtctccgag atgacaaatt
5761 caaggtttcc tgtcgttttg gatcaaatgt acacgagcag gaatgaaaac atcattgtcc
5821 aaccccaaaa tggcaggtgc acgactgacg gtgagctgct cggcactacc atcttgcagt
5881 ctgtatctat ttgtaatttc agagggacta tgcaggcaaa gttgaatgaa caaccacgat
5941 accaactaca acttaccaac ttggatggct cacccataga tccaacagat gacatgcctg
6001 ccccacttgg cacaccagac tttcaggcta tgttgtatgg cgttgcaagt caacgatctt
6061 ccagagacaa cgccactagg gcacatgatg cacagattga cactgcgggt gatacattcg
6121 cccccaagat tggccaggtt cgtttcaaat caagctctga tgattttgac ctacatgacc
6181 ccacaaaatt cacgcccatt ggtgtcaatg tggatgatca gcaccctttc agacagtggt
6241 ccctaccaaa ttacggtggc caccttgccc tgaacaatca tttggccccc gctgtgacac
6301 cactcttccc tggcgagcag attttgttct tcaggtcata cattccaagt gctggaggcc
6361 acacagacgg cgctatggac tgcttgctac cccaagagtg gatagagcac ttctaccagg
6421 aggcagcccc ttcccaatct gacatcgcac tggtgaggtt cataaaccct gacacaggaa
6481 gagtgctctt tgaagctaaa ttgcacaaac agggcttcct cacaattgca gcatctggag
6541 atcaccctat tgtgatgccc actaatggtt atttcaggtt tgaagcttgg gttaacccct
6601 tctacactct cgcccccgtg ggaactgggt ctgggcgcag gaggatccaa taatggcagg
6661 agctttcctt gcaggcttgg caggtgacgt tgtgacttcc agcttgggct cactcgtggg
6721 cgctggagcc aacgccatca atcagaaagt ggagtatgac ttcaacaggc agctccagga
6781 ggcatctttt agacatgaca aggatatgct caaggcccag gttgcagcaa cagcaggcct
6841 tcaacaggcc atgatagaca tcaagcggga ggcattgacc gcaggcggct tttcccccgc
6901 tgatgctgca agaggtgcgg tcagggcgcc tatgacacag atccttgact ggaatggctc
6961 taggtattgg gcccccaact ccatgaagac aacaggttac tcaggcacat ttgcttccca
7021 aggcatcaaa aatcttcccc acctgtctag tcaagctcca agtgctgcta gacccaccaa
7081 agcttcaccg tctatatcta gttcttctag tgtatatagt tctccttcta ctgctccctc
7141 gcaatcaaca caatcaacaa cgctgtctgc aggaactggg tcgtccaggc ctaacaccgt
7201 gtccacaaag acctccacac tgtcgaggac aagtgattgg gtcagaggcc aaaatgagat
7261 gcttggcccg ttcatgagtg gtgcactcca aactgcttac gttacaccac catcgagcag
7321 ggcctcatca caagggacgg tctcgaccgt acccaaggct gttttggact cctggactcc
7381 tatgttcaac acccacaggc agcctctctt cgcccacttg cgtaggcgag gggagtcaca
7441 gatttagtga aaaggatgat tagggctttt ctttctttcc ccttcttatt ctttt
//